Noise correction in gene expression data: a new approach based on subspace method

Authors: Alharbi, N., Ghodsi, Z., Hassani, H.

Journal: Mathematical Methods in the Applied Sciences

Publication Date: 15/09/2016

Volume: 39

Issue: 13

Pages: 3750-3757

eISSN: 1099-1476

ISSN: 0170-4214

DOI: 10.1002/mma.3823

Abstract:

We present a new approach for removing the nonspecific noise from Drosophila segmentation genes. The algorithm used for filtering here is an enhanced version of singular spectrum analysis method, which decomposes a gene profile into the sum of a signal and noise. Because the main issue in extracting signal using singular spectrum analysis procedure lies in identifying the number of eigenvalues needed for signal reconstruction, this paper seeks to explore the applicability of the new proposed method for eigenvalues identification in four different gene expression profiles. Our findings indicate that when extracting signal from different genes, for optimised signal and noise separation, different number of eigenvalues need to be chosen for each gene. Copyright © 2016 John Wiley & Sons, Ltd.

https://eprints.bournemouth.ac.uk/29718/

Source: Scopus